Weird behaviour after APIC_IO changes

After the APIC_IO changes I've noticed that some things in my computer are not
working anymore like USB ports and PS/2 mouse. Everything worked like a charm as
of last commit at October 2nd. I've build everything up (world,kernel) as of
Nov, 26th and there are differences in the verbose boot.

Find below the complete verbose dmesg and also a diff against both dmesgs
(sorted first).